dynameomics.org

Dynameomics - Home Page

At the university of washington. Dynameomics is a continuing project in the Daggett group. To characterize the native state dynamics and the folding / unfolding pathway of representatives from all known protein folds by molecular dynamics simulation. This effort began with the creation of a consensus fold list. This was done by cross-referencing the fold definitions used in SCOP, CATH, and the Dali Domain Dictionary as described in the Origin of the Fold List. Page for further details. If you make use of...

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Dynameomics - Home Page | dynameomics.org Reviews

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At the university of washington. Dynameomics is a continuing project in the Daggett group. To characterize the native state dynamics and the folding / unfolding pathway of representatives from all known protein folds by molecular dynamics simulation. This effort began with the creation of a consensus fold list. This was done by cross-referencing the fold definitions used in SCOP, CATH, and the Dali Domain Dictionary as described in the Origin of the Fold List. Page for further details. If you make use of...

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2 the daggett group

3 target stats

4 target list

5 snps

6 slirp

7 methods

8 database

9 data mining

10 publications

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Dynameomics - Home Page | dynameomics.org Reviews

https://dynameomics.org

At the university of washington. Dynameomics is a continuing project in the Daggett group. To characterize the native state dynamics and the folding / unfolding pathway of representatives from all known protein folds by molecular dynamics simulation. This effort began with the creation of a consensus fold list. This was done by cross-referencing the fold definitions used in SCOP, CATH, and the Dali Domain Dictionary as described in the Origin of the Fold List. Page for further details. If you make use of...

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dynameomics.org

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Dynameomics - Datamining

http://www.dynameomics.org/Datamining/index.aspx

At the university of washington. We have undertaken an number of large scale analyses using the Dynameomics database. These include flexibility and wavelet analysis, mining the properties of the transition and denatured states and assignment of states to unfolding simulations. A variety of methods have been used to analyze this large set of data including SQL queries, C# stored procedures and Mathematica. DIVE: A Data Intensive Visualization Engine.

2

Dynameomics - Help

http://www.dynameomics.org/help/index.aspx

At the university of washington. Contact us at dynameomics info@uw.edu. Using the Dynameomics.org Website. Movies are formatted as .mov files and require that you have a viewer such as QuickTime. Using the Analysis Tools. In order to use our Analysis Tools in the Target List section of Dynameomics.org, you will need to have a current version of Java. Running on your local machine. Note that loading java and individual protein structures can be slow. Download Request Form Here. 423-435, 2010. [ DOI. Beck,...

3

Dynameomics - Related Publications

http://www.dynameomics.org/external/Publications/index.aspx

At the university of washington. General Description of Dynameomics. Papers Making use of Dynameomics Data. Papers Making Use of SNP Data. Papers Making Use of Consensus Domain Dictionary. Please let us know. If you use our data for a paper of your own - we'll post it here! General Description of Dynameomics. 18: 423-435, 2010. [ DOI. 335-344, 2010. [ DOI. 21: 353-368, 2008. [ DOI. 1060-1069, 2012. [ DOI. 46-54, 2011. [ DOI. Day R, Beck DA, Armen RS, and Daggett V. A consensus view of fold space: Com...

4

Dynameomics - Target Selection and Statistics

http://www.dynameomics.org/targetstats/index.aspx

At the university of washington. Target selection and statistics. Dynameomics targets were selected from the Consensus Domain Dictionary. Approximately one-third of the selected targets are enzymes, mostly transferases and hydrolases. Most of the enzymes of glycolysis are included. In addition to enzymes, the simulated domains were drawn from a wide range of proteins, including nucleotide binding proteins, enzyme inhibitors, structural proteins, and transcription factors.

5

Dynameomics - Target Lists

http://www.dynameomics.org/external/Targetlist/index.aspx

At the university of washington. Top 100 Release Target Set. Representatives of the Top 100 most populated v2009 metafolds. Full Release Target Set. Representatives of each of the 807 simulatable v2009 metafolds. Full Consensus Domain Dictionary. Representatives of each of the 1695 Metafolds. The Consensus Domain Dictionary available here is also referred to as the v2009 CDD. 27:46-54, 2011. [ DOI. 2003 Consensus Domain Dictionary. 12: 2150-2160, 2003. [ DOI.

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depts.washington.edu

Daggett Research Group at the University of Washington

http://depts.washington.edu/daglab

Paper of the Month. DIVE: A data instensive visualization engine. Bromley, D., Rysavy, S.J., Su, R., Toofanny, R.D., Schmidlin, T., Daggett V. Bioinformatics 30:593, 2014. Goals: Realistic simulation of protein dynamics, unfolding/folding, and conformational transitions linked to disease. Congratulations to Nathan Maris who received the Biochemistry Department's Research Excellence Award at the 2016 Graduation Ceremony! Read more at their website by pressing here. Congratulations to Nathan Maris and Mich...

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dynameomics.org

Dynameomics - Home Page

At the university of washington. Dynameomics is a continuing project in the Daggett group. To characterize the native state dynamics and the folding / unfolding pathway of representatives from all known protein folds by molecular dynamics simulation. This effort began with the creation of a consensus fold list. This was done by cross-referencing the fold definitions used in SCOP, CATH, and the Dali Domain Dictionary as described in the Origin of the Fold List. Page for further details. If you make use of...

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